Dipolar Assisted Assignment Protocol (DAAP) for MAS solid-state NMR of rotationally aligned membrane proteins in phospholipid bilayers

Journal of Magnetic Resonance

Volumn 242, Issue , 2014, Pages 224-232

  Das, Bibhuti B ^a   Zhang, Hua ^a   Opella, Stanley J ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

MAS; Membrane protein; Solid state NMR; Vpu

Indexed keywords

BIOLOGICAL MEMBRANES; CHEMICAL SHIFT; MAGIC ANGLE SPINNING; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PHOSPHOLIPIDS; SOLID STATE PHYSICS;

HETERONUCLEAR DIPOLAR COUPLINGS; ISOTROPIC CHEMICAL SHIFTS; MAS; MEMBRANE PROTEINS; RESONANCE ASSIGNMENTS; ROTATIONAL ALIGNMENT; SOLID STATE NMR; VPU;

PROTEINS;

LIPID BILAYER; MEMBRANE PROTEIN; PHOSPHOLIPID;

ALGORITHM; CHEMISTRY; LIPID BILAYER; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PROCEDURES; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY;

ALGORITHMS; LIPID BILAYERS; MAGNETIC RESONANCE SPECTROSCOPY; MEMBRANE PROTEINS; PHOSPHOLIPIDS; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY;

EID: 84897488684     PISSN: 10907807     EISSN: 10960856     Source Type: Journal    
DOI: 10.1016/j.jmr.2014.02.018     Document Type: Article

References (40)

1. A. McDermott Structure and dynamics of membrane proteins by magic angle spinning solid-state NMR Annu. Rev. Biophys. 38 2009 385 403
2. S.J. Opella Structure determination of membrane proteins by nuclear magnetic resonance spectroscopy Annu. Rev. Anal. Chem. 6 2013 305 328
3. A. Schuetz, C. Wasmer, B. Habenstein, R. Verel, J. Greenwald, R. Riek, A. Böckmann, and B.H. Meier Protocols for the sequential solid-state NMR spectroscopic assignment of a uniformly labeled 25 kDa protein: HET-s(1-227) ChemBioChem 11 2010 1543 1551
4. L. Shi, E.M. Lake, M.A. Ahmed, L.S. Brown, and V. Ladizhansky Solid-state NMR study of proteorhodopsin in the lipid environment: secondary structure and dynamics Biochim. Biophys. Acta (BBA) - Biomembr. 1788 2009 2563 2574
5. W. Tang, R.W. Knox, and A.A. Nevzorov A spectroscopic assignment technique for membrane proteins reconstituted in magnetically aligned bicelles J. Biomol. NMR 54 2012 307 316
6. K. Ikeda, A. Egawa, and T. Fujiwara Secondary structural analysis of proteins based on (13)C chemical shift assignments in unresolved solid-state NMR spectra enhanced by fragmented structure database J. Biomol. NMR 55 2013 189 200
7. B.B. Das, H.J. Nothnagel, G.J. Lu, W.S. Son, Y. Tian, F.M. Marassi, and S.J. Opella Structure determination of a membrane protein in proteoliposomes J. Am. Chem. Soc. 134 2012 2047 2056
8. F. Hefke, A. Bagaria, S. Reckel, S.J. Ulrich, V. Dotsch, C. Glaubitz, and P. Guntert Optimization of amino acid type-specific 13C and 15N labeling of the backbone assignment of membrane proteins by solution- and solid-state NMR with the UPLABEL algorithm J. Biomol. NMR 49 2011 75 84
9. R.A. Cone Rotational diffusion of rhodopsin in the visual receptor membrane Nat. New Biol. 236 1972 39 43
10. M. Edidin Rotational and translational diffusion in membranes Annu. Rev. Biophys. Bioeng. 3 1974 179 201
11. H.M. McConnell, and W.L. Hubbell Molecular motion in spin-labeled phospholipids and membranes J. Am. Chem. Soc. 93 1971 314 326
12. M.M. Poo, and R.A. Cone Lateral diffusion of rhodopsin in the photoreceptor membrane Nature 247 1974 438 441
13. R.J. Cherry Protein mobility in membranes FEBS Lett. 55 1975 1 7
14. A.C. McLaughlin, P.R. Cullis, M.A. Hemming, D.I. Hoult, G.K. Radda, G.A. Ritchie, P.J. Seeley, and R.E. Richards Application of 31P NMR to model and biological membrane systems FEBS Lett. 57 1975 1 7
15. S.H. Park, A.A. Mrse, A.A. Nevzorov, A.A. De Angelis, and S.J. Opella Rotational diffusion of membrane proteins in aligned phospholipid bilayers by solid-state NMR spectroscopy J. Magn. Reson. 178 2006 162 165
16. B. Lewis, G. Harbison, J. Herzfeld, and R.G. Griffin NMR structural analysis of a membrane protein: bacteriorhodopsin peptide backbone orientation and motion Biochemistry 24 1985 4671 4679
17. F.M. Marassi, B.B. Das, G.J. Lu, H.J. Nothnagel, S.H. Park, W.S. Son, Y. Tian, and S.J. Opella Structure determination of membrane proteins in five easy pieces Methods 55 2011 363 369
18. S.H. Park, F. Casagrande, B.B. Das, L. Albrecht, M. Chu, and S.J. Opella Local and global dynamics of the G protein-coupled receptor CXCR1 Biochemistry 50 2011 2371 2380
19. S.H. Park, B.B. Das, A.A. De Angelis, M. Scrima, and S.J. Opella Mechanically, magnetically, and "Rotationally Aligned" membrane proteins in phospholipid bilayers give equivalent angular constraints for NMR structure determination J. Phys. Chem. B 114 2010 13995 14003
20. H.S. Gutowsky, and G.E. Pake Structural investigations by means of nuclear magnetism. II. Hindered rotation in solids J. Chem. Phys. 18 1950 162 170
21. M. Mehring, R.G. Griffin, and J.S. Waugh 19F shielding tensors from coherently narrowed NMR powder spectra J. Chem. Phys. 55 1971 746 755
22. S.H. Park, A.A. De Angelis, A.A. Nevzorov, C.H. Wu, and S.J. Opella Three-dimensional structure of the transmembrane domain of Vpu from HIV-1 in aligned phospholipid bicelles Biophys. J. 91 2006 3032 3042
23. R.S. Thaukur, N.D. Kurur, and P.K. Madhu Swept-frequency two-pulse phase modulation for heteronuclear dipolar decoupling in solid-state NMR Chem. Phys. Lett. 426 2006 459 463
24. A.J. Shaka, J.M. Keeler, and R. Freeman Evaluation of a new broadband decoupling sequence. WALTZ-16 J. Magn. Reson. 53 1983 313 340
25. A. Pines, M.G. Gibby, and J.S. Waugh Proton-enhanced NMR of dilute spins in solids J. Chem. Phys. 59 1973 569 590
26. M. Baldus, A.T. Petkova, J. Herzfeld, and R.G. Griffin Cross polarization in the tilted frame: assignment and spectral simplification in heteronuclear spin systems Mol. Phys. 95 1998 1197 1207
27. C.P. Jaroniec, C. Filip, and R.G. Griffin 3D TEDOR NMR experiments for the simultaneous measurement of multiple carbon-nitrogen distances in uniformly 13C, 15N-labeled solids J. Am. Chem. Soc. 124 2002 10728 10742
28. N.M. Szeverenyi, M.J. Sullivan, and G.E. Maciel Observation of spin exchange by two-dimensional Fourier transform 13C cross polarization-magic-angle spinning J. Magn. Reson. 47 1982 1969 462 475
29. D. Suter, and R. Ernst Spin diffusion in resolved solid-state NMR spectra Phys. Rev. B 32 1985 5608 5627
30. A. Grommek, B.H. Meier, and M. Ernst Distance information from proton-driven spin diffusion under MAS Chem. Phys. Lett. 427 2006 404 409
31. J.-N. Dumez, M.E. Halse, M.C. Butler, and L. Emsley A first-principles description of proton-driven spin diffusion Phys. Chem. Chem. Phys. 14 2011 86 89
32. K. Takegoshi, S. Nakamura, and T. Terao 13C-1H dipolar-assisted rotational resonance in magic-angle spinning NMR Chem. Phys. Lett. 344 2001 631 637
33. X. Zhao, M. Eden, and M.H. Levitt Recoupling of heteronuclear dipolar interactions in solid-state NMR using symmetry-based pulse sequences Chem. Phys. Lett. 342 2001 353 361
34. J.S. Waugh Uncoupling of local field spectra in nuclear magnetic resonance. Determination of atomic position in solids Proc. Natl. Acad. Sci. USA 73 1976 1394 1397
35. J. Herzfeld, and A.E. Berger Sideband intensities in NMR spectra of samples spinning at the magic angle J. Chem. Phys. 73 1980 6021 6030
36. N.M. Loening, M. Bierring, N.C. Nielsen, and H. Oschkinat A comparison of NCO and NCS transfer methods for biological solid-state NMR spectroscopy J. Magn. Reson. 214 2012 81 90
37. X. Zhao, W. Hoffbauer, J. Schmedt auf der Günne, and M.H. Levitt Heteronuclear polarization transfer by symmetry-based recoupling sequences in solid-state NMR Solid State Nucl. Magn. Reson. 26 2004 57 64
38. M.F. Mesleh, G. Veglia, T.M. DeSilva, F.M. Marassi, and S.J. Opella Dipolar waves as NMR maps of protein structure J. Am. Chem. Soc. 124 2002 4206 4207
39. S.H. Park, and S.J. Opella Tilt angle of a trans-membrane helix is determined by hydrophobic mismatch J. Mol. Biol. 350 2005 310 318
40. G. Hou, S. Paramasivam, S. Yan, T. Polenova, and A.J. Vega Multidimensional magic angle spinning NMR spectroscopy for site-resolved measurement of proton chemical shift anisotropy in biological solids J. Am. Chem. Soc. 135 2013 1358 1368